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NC_003157.5__NP_438168.1__phiNIH1.1_p56__00056

Bact-Vir

NC_003157.5__NP_438168.1__phiNIH1.1_p56__00056

Identity

Accession:
NC_003157 ↗
Kingdom:
phage

Quality

73.9 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 15-65
PDB
Domain cluster: representative
CATH (54)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1o9gA02 1.10.287.540 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.91 71.0 7.61e-01 82.4% 97.7%
2fzfA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.90 83.0 5.77e-01 100.0% 36.7%
1gqeA01 1.20.58.410 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Release factor 0.90 80.0 6.09e-01 100.0% 44.2%
3txsC01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.88 79.0 6.95e-01 100.0% 68.0%
4l0rB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.87 78.0 6.92e-01 100.0% 75.3%
6r1nA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.86 77.0 6.06e-01 100.0% 52.4%
1aueB00 1.20.120.150 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › FKBP12-rapamycin binding domain 0.86 70.0 5.62e-01 88.2% 47.9%
1a36A04 1.10.132.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.86 77.0 5.21e-01 100.0% 29.1%
2rp4A00 6.10.280.60 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Transcription factor p53, C-terminal domain 0.85 73.0 6.51e-01 98.0% 67.6%
1rv2D04 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.85 75.0 6.78e-01 100.0% 82.9%
2rklF00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.85 63.0 6.27e-01 92.2% 76.9%
6h9xA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.85 75.0 5.94e-01 100.0% 52.9%
1z0pA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.85 73.0 6.51e-01 98.0% 82.2%
8fbnB01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.84 74.0 4.80e-01 100.0% 37.4%
2aw6A02 1.25.40.400 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.84 65.0 4.14e-01 82.4% 19.0%
2ic6A00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.84 75.0 6.69e-01 100.0% 71.8%
2rkhA02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.83 64.0 5.63e-01 84.3% 80.3%
3q1pA01 6.10.250.1120 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.83 57.0 6.23e-01 80.4% 94.9%
1rtwB00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.83 73.0 4.79e-01 100.0% 26.0%
3rkgA02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.82 71.0 4.95e-01 98.0% 59.8%
2bdeA03 1.20.58.1160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.82 73.0 6.36e-01 100.0% 84.4%
1ku9A02 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.81 69.0 6.39e-01 94.1% 100.0%
3kwoA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.81 70.0 5.06e-01 100.0% 34.2%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.81 68.0 5.21e-01 100.0% 40.3%
3dyjA02 1.20.1420.10 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › Talin, central domain 0.81 70.0 5.00e-01 100.0% 33.8%
1vq8V00 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.80 70.0 6.53e-01 100.0% 78.5%
1yvwA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.80 68.0 5.62e-01 98.0% 54.3%
3a98A02 1.20.1270.350 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Dedicator of cytokinesis N-terminal subdomain 0.79 63.0 5.35e-01 90.2% 58.6%
3nbxX03 1.20.58.1510 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.79 68.0 5.38e-01 100.0% 48.5%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.79 67.0 6.25e-01 100.0% 77.6%
4w8pA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.78 67.0 5.05e-01 100.0% 39.2%
1vmgA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.78 66.0 5.69e-01 98.0% 61.0%
3qhbA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.77 71.0 4.71e-01 100.0% 86.0%
1ucuA01 6.10.280.190 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.77 66.0 6.06e-01 100.0% 73.5%
5xtck00 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.77 64.0 5.26e-01 100.0% 50.5%
1bgfA00 1.10.532.10 Mainly Alpha › Orthogonal Bundle › Transcription Factor, Stat-4 › STAT transcription factor, N-terminal domain 0.76 60.0 4.59e-01 92.2% 37.1%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 64.0 5.89e-01 100.0% 73.9%
3rkoG00 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.76 66.0 5.34e-01 100.0% 59.0%
4gczA03 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.75 63.0 5.92e-01 98.0% 98.5%
3uj9A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.75 62.0 3.91e-01 92.2% 20.2%
7zmgL01 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.75 65.0 5.64e-01 100.0% 75.0%
2a26B01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.74 57.0 5.93e-01 90.2% 100.0%
4hb1A00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.74 55.0 5.67e-01 92.2% 97.7%
3l8rA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.74 62.0 5.06e-01 100.0% 63.7%
1y6xA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.73 60.0 5.18e-01 98.0% 57.5%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.73 61.0 5.29e-01 100.0% 87.1%
4dciA00 6.10.140.1110 Special › Helix non-globular › Helix Hairpins › 0.72 61.0 4.39e-01 96.1% 34.0%
4q20A01 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.71 58.0 5.00e-01 92.2% 80.5%
3m3mA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.70 58.0 4.51e-01 100.0% 42.2%
2x2vA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.67 54.0 5.08e-01 96.1% 76.5%
4h63H01 1.20.58.1710 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 54.0 4.94e-01 94.1% 98.6%
1bhaA00 1.10.287.170 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.67 54.0 5.05e-01 96.1% 86.6%
2gv9A05 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.67 54.0 5.25e-01 100.0% 86.4%
2e62A01 6.10.140.420 Special › Helix non-globular › Helix Hairpins › 0.57 48.0 4.78e-01 94.1% 90.4%
ECOD (48)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3586969 5082.1.1.1 alpha bundles › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation_efflux 0.94 88.0 5.64e-01 100.0% 24.9%
3943105 2004.1.1.5 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.94 83.0 4.65e-01 100.0% 9.3%
3486385 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.94 87.0 6.67e-01 100.0% 48.6%
3538067 633.10.1.15 alpha bundles › Bromodomain-like › IVS-encoded protein-like › IVS-encoded protein-like › Transmemb_17 0.92 81.0 6.54e-01 96.1% 53.3%
4201121 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.92 84.0 7.94e-01 100.0% 85.0%
5020412 601.4.1.0 alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.91 84.0 6.44e-01 100.0% 48.6%
5064482 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.90 82.0 5.57e-01 100.0% 30.9%
5069780 5086.1.1.0 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.89 80.0 6.42e-01 100.0% 53.7%
3973019 159.1.1.0 alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › Hypothetical protein AF_0060 0.89 76.0 5.81e-01 100.0% 43.6%
5006528 605.1.1.0 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.89 80.0 6.98e-01 100.0% 68.0%
437078 3713.1.1.1 alpha bundles › Small terminase central domain › Small terminase central domain › Small terminase central domain › DNA_Packaging 0.88 79.0 6.49e-01 100.0% 56.0%
3503444 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.88 79.0 6.47e-01 100.0% 56.7%
5008319 605.1.1.10 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › SPOB_a 0.88 79.0 7.28e-01 100.0% 83.1%
5044936 159.1.2.0 alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › MazG-related 0.88 73.0 5.83e-01 90.2% 48.4%
3655628 4177.1.1.0 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.88 79.0 4.99e-01 100.0% 21.7%
3693881 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.87 79.0 7.08e-01 100.0% 78.6%
3940690 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.87 77.0 5.94e-01 96.1% 46.7%
5077382 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.86 75.0 6.04e-01 100.0% 51.6%
3215082 4177.1.1.0 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.86 77.0 5.57e-01 100.0% 37.8%
3901696 192.8.1.240 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › HR1 0.86 76.0 6.39e-01 100.0% 60.0%
3336677 605.1.1.132 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › DUF641 0.85 77.0 6.70e-01 100.0% 70.7%
5006542 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.85 76.0 7.21e-01 100.0% 85.0%
3268739 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.85 75.0 5.99e-01 100.0% 65.0%
4965929 223.1.1.13 a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_3 0.85 73.0 4.41e-01 96.1% 17.0%
4784164 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.85 76.0 6.80e-01 100.0% 72.9%
3668856 604.5.1.7 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › ALMT 0.84 74.0 5.71e-01 100.0% 44.3%
3883526 4177.1.1.1 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › FCH 0.84 75.0 4.56e-01 100.0% 16.8%
3180581 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.84 74.0 6.26e-01 100.0% 81.2%
3465928 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.83 74.0 5.11e-01 100.0% 31.5%
4798159 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.83 73.0 6.43e-01 100.0% 67.1%
4946791 605.1.1.0 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.83 73.0 6.46e-01 100.0% 68.0%
4026684 192.20.1.7 alpha bundles › Long alpha-hairpin › helical hairpin domain in transcriptional anti-activator ExsD › helical hairpin domain in transcriptional anti-activator ExsD › PF26729 0.83 74.0 5.80e-01 100.0% 48.6%
4078998 5059.1.1.2 alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › Multi_Drug_Res 0.83 75.0 5.83e-01 100.0% 48.6%
4148010 632.1.1.24 alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › DAGK_prokar 0.83 72.0 5.44e-01 100.0% 54.4%
3646879 304.48.1.0 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.82 68.0 4.79e-01 94.1% 30.0%
5016327 605.1.1.2 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › H-kinase_dim 0.82 71.0 6.48e-01 100.0% 72.9%
5010044 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.81 70.0 5.76e-01 100.0% 53.7%
3451533 192.29.1.237 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › DUF3755 0.81 71.0 6.10e-01 100.0% 70.0%
4253651 3843.1.1.0 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.80 70.0 5.92e-01 100.0% 69.4%
3491418 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.79 69.0 6.12e-01 100.0% 68.0%
3487862 212.1.1.0 a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like 0.79 69.0 4.42e-01 100.0% 21.3%
3902100 3291.1.1.0 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.77 66.0 5.65e-01 100.0% 61.2%
3556027 5086.1.1.0 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.77 65.0 5.63e-01 100.0% 61.2%
3560750 192.17.1.0 alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.77 64.0 5.93e-01 100.0% 72.9%
3344575 9.26.1.0 beta barrels › Lipocalins/Streptavidin 0.77 68.0 4.54e-01 100.0% 26.2%
3855461 3922.1.1.0 alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 0.76 65.0 5.59e-01 100.0% 61.2%
2323907 212.1.1.24 a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Morc6_S5 0.76 64.0 4.22e-01 100.0% 22.9%
4175967 3291.1.1.0 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.73 61.0 5.23e-01 100.0% 57.6%